ProtProtocols IsoProt issues

ProtProtocols / IsoProt

Protocol of the analysis of iTRAQ/TMT proteomics data including quantification, statistical analysis and maybe clustering

https://protprotocols.github.io

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issues

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#97 nilitiko opened 3 years ago
5
Deploying IsoProt using Singularity

#96 ssamberkar opened 4 years ago
5
Output normalization ratios for QC

#95 veitveit opened 5 years ago
0
Move to Jupyter Lab

#94 veitveit opened 5 years ago
0
Add support for RawTools?

#93 chrishuges opened 5 years ago
2
Add TMT11, TMT7, iTRAQ5 and iTRAQ9

#92 veitveit opened 5 years ago
1
SearchUI fails silently on writing the output files

#91 iustin94 opened 5 years ago
0
Preliminary assesment of files

#90 iustin94 opened 5 years ago
2
Facilitate manual change of isotope corrections

#89 veitveit opened 5 years ago
3
Unhandled exception in check_file_printing

#88 iustin94 closed 5 years ago
1
Verbose execution

#87 iustin94 closed 5 years ago
0
R version lets new bioconductor packages fail

#86 veitveit closed 5 years ago
3
Minimize image size

#85 iustin94 closed 5 years ago
2
Test if output directory is writeable

#84 jgriss opened 5 years ago
0
Find option to download workbook without code cells

#83 jgriss opened 5 years ago
0
Notificaton messages are displayed multiple times

#82 jgriss opened 5 years ago
0
Improve the README a bit (more newbie friendly)

#81 joncison closed 5 years ago
8
HTML message boxes not rendered in PDF output

#80 jgriss opened 5 years ago
0
Re-opening a workbook causes very high load

#79 jgriss closed 5 years ago
2
Methods section not rendered in HTML output

#78 jgriss opened 5 years ago
0
Ugly error is being displayed in case the config file doesn't fit the version

#77 jgriss closed 5 years ago
0
Cache MSnbase peaklist object

#76 jgriss closed 5 years ago
0
Add selection box for PSM-level normalisation

#75 jgriss closed 5 years ago
4
Add minimum fold-change as parameter

#74 jgriss opened 5 years ago
0
Run full workflow from command line

#73 veitveit opened 5 years ago
2
Ensure that Notebooks do not contain any cell output

#72 jgriss closed 5 years ago
1
Add support for raw files

#71 veitveit opened 5 years ago
3
Loading previous data triggers error in R scripts

#70 veitveit closed 5 years ago
3
widgets not always visible

#69 veitveit closed 5 years ago
11
Releases should contain ready prepared zip files to download

#68 jgriss closed 5 years ago
2
openBrowser.vbs needs to be shipped with run.bat

#67 jgriss closed 5 years ago
1
run.bat aborts on Windows 10 if file sharing does not work

#66 jgriss closed 5 years ago
1
run.bat on Windows 10 does not recognize installed image

#65 jgriss closed 5 years ago
3
wrong estimation of free memory

#64 veitveit closed 5 years ago
4
Define docker release process

#63 jgriss closed 5 years ago
4
ERROR:root:File `'Scripts/methods_generator.ipy.py'` not found.

#62 veitveit closed 5 years ago
3
Clean source code

#61 veitveit closed 5 years ago
4
Treatment for variable modifications

#60 veitveit closed 5 years ago
1
Wrong precursor tolerance range

#59 veitveit closed 5 years ago
0
Save (search) output to log file

#58 jgriss closed 5 years ago
5
Error messages from search are not helpful

#57 jgriss closed 5 years ago
0
Package project in some way

#56 jgriss closed 5 years ago
5
Warning HTML object may not be visible when displaying messages

#55 jgriss closed 5 years ago
1
Hide "run_analysis" when loading previous results and the user changes the settings

#54 jgriss closed 5 years ago
1
Changing spectra directory causes error when read permission is missing

#53 jgriss closed 5 years ago
0
Change search output to use a dedicated HTML object

#52 jgriss opened 5 years ago
2
Test on Windows machine

#51 veitveit closed 5 years ago
6
Avoid change to scrollling cell outputs or increase size

#50 veitveit closed 5 years ago
0
Mounting folders could fail due to different user IDs

#49 veitveit closed 5 years ago
1
Save parameters in json file and load them in R again

#48 veitveit closed 5 years ago
3